Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 114421 |
| Name | oriT_pS11L-2  |
| Organism | Bradyrhizobium japonicum strain S11L-Bj |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP126015 (125226..125262 [-], 37 nt) |
| oriT length | 37 nt |
| IRs (inverted repeats) | 17..23, 28..34 (ACGTCGC..GCGACGT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 37 nt
>oriT_pS11L-2
CCAAGGGCGCAGTAATACGTCGCTGATGCGACGTCCT
CCAAGGGCGCAGTAATACGTCGCTGATGCGACGTCCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9241 | GenBank | WP_304501736 |
| Name | traA_QIH95_RS50970_pS11L-2 |
UniProt ID | _ |
| Length | 1102 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1102 a.a. Molecular weight: 123330.41 Da Isoelectric Point: 10.2024
>WP_304501736.1 Ti-type conjugative transfer relaxase TraA [Bradyrhizobium japonicum]
MAITHFTPQLIGRGDGRSAVLAAAYRHCAKMEFEAEGRTVDYSNKRGMIHEEFQVPADAPAWLRTMIADR
SVAGASEAFWNKVEAFEKRADAQFAKEFIIALPVELTLEQNIALMRQFVVEQVLSRGQVADWVYHDERGN
PHVHLMTTLRPLNEDGFGPKRVAVIGEDGQPQRMKSGKIAYRLWAGDKQEFLEQRNGWLDLQNQHLALNG
HEIRVDGRSYAERGIDVVPTTHIGVAAKAIQRRAEREGRDPNLERLRVFNENRAETLRRIQRRPEIVLDM
ISREKSVFDERDVGKLLHRYVDDAATFQHLMARVLQSPDVLQLEGEQVDFATGARAPAKYTTRELIRLEA
EMVRRAVHLSGSGAFPVKPSVLAAMSARHANLSAEQRAAIAHLASGIRIAAVVGRAGAGKTTMMRAAREV
WEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKSGRDGLDDRTVFVLDEAGMVASRQMALFVE
TASKAGAKLVLVGDPEQLQPIEAGAAFRAIVERIGYAELETIYRQRQQWMRDASLDLARGRTAQALSAYR
QQGRVFGSELKAQAIDNLIADWNRDYDPSKSTLILAHLRRDIRALNEMARAKLVERGLLEQGHAFRTEDG
ERRFAPGDQIVFLKNEGSLGVKNGMIGKVVEAGTARLVAEIGEGECRCRVEVDQRFYRNIDHGYATTVHK
AQGATVDRVKVLATLSLDKHLTYVALTRHREDVALYYGRRSFQKAGGLIPILSQRRAKETTLDYERGSLY
RDALHFAANRGLHIVRVARTLVNDRLRWTVRQKQRLTEVGRRVRALGEKLGLVDARKPIINTGHKEAKLM
VAGVTTFSKSLIDTVEDRILADPAIKKQWEDVSTRFRLVFADPERAFRATNFDAMLKDSAAASSTIARLA
TNPESFGALRGKAGLLAGRTDKQERQRAEANVPALKRDIERYLRLRAEAEHKHESEERTIRHRVAIDIPA
LSRDARRVLERVRDAIDRNDQPSALEFALEDRMVKAEIDGFNKAIAERFGDRTFLANAAKEPNGQTFEKA
AAGMDRARCEQLKEAWPALRAAQQLAAGERTAQALKQAEAQRLTQSQGQTLK
MAITHFTPQLIGRGDGRSAVLAAAYRHCAKMEFEAEGRTVDYSNKRGMIHEEFQVPADAPAWLRTMIADR
SVAGASEAFWNKVEAFEKRADAQFAKEFIIALPVELTLEQNIALMRQFVVEQVLSRGQVADWVYHDERGN
PHVHLMTTLRPLNEDGFGPKRVAVIGEDGQPQRMKSGKIAYRLWAGDKQEFLEQRNGWLDLQNQHLALNG
HEIRVDGRSYAERGIDVVPTTHIGVAAKAIQRRAEREGRDPNLERLRVFNENRAETLRRIQRRPEIVLDM
ISREKSVFDERDVGKLLHRYVDDAATFQHLMARVLQSPDVLQLEGEQVDFATGARAPAKYTTRELIRLEA
EMVRRAVHLSGSGAFPVKPSVLAAMSARHANLSAEQRAAIAHLASGIRIAAVVGRAGAGKTTMMRAAREV
WEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKSGRDGLDDRTVFVLDEAGMVASRQMALFVE
TASKAGAKLVLVGDPEQLQPIEAGAAFRAIVERIGYAELETIYRQRQQWMRDASLDLARGRTAQALSAYR
QQGRVFGSELKAQAIDNLIADWNRDYDPSKSTLILAHLRRDIRALNEMARAKLVERGLLEQGHAFRTEDG
ERRFAPGDQIVFLKNEGSLGVKNGMIGKVVEAGTARLVAEIGEGECRCRVEVDQRFYRNIDHGYATTVHK
AQGATVDRVKVLATLSLDKHLTYVALTRHREDVALYYGRRSFQKAGGLIPILSQRRAKETTLDYERGSLY
RDALHFAANRGLHIVRVARTLVNDRLRWTVRQKQRLTEVGRRVRALGEKLGLVDARKPIINTGHKEAKLM
VAGVTTFSKSLIDTVEDRILADPAIKKQWEDVSTRFRLVFADPERAFRATNFDAMLKDSAAASSTIARLA
TNPESFGALRGKAGLLAGRTDKQERQRAEANVPALKRDIERYLRLRAEAEHKHESEERTIRHRVAIDIPA
LSRDARRVLERVRDAIDRNDQPSALEFALEDRMVKAEIDGFNKAIAERFGDRTFLANAAKEPNGQTFEKA
AAGMDRARCEQLKEAWPALRAAQQLAAGERTAQALKQAEAQRLTQSQGQTLK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 10704 | GenBank | WP_304501765 |
| Name | t4cp2_QIH95_RS50595_pS11L-2 |
UniProt ID | _ |
| Length | 817 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 817 a.a. Molecular weight: 91395.15 Da Isoelectric Point: 6.3005
>WP_304501765.1 conjugal transfer protein TrbE [Bradyrhizobium japonicum]
MVALRSFRHSGPSFADLVPYAGLVANGIVLLKDGSLMAGWYFAGPDSESSTDAERNGVSRQINTILARLG
SGWMIQVEAVRVPTTDYPARQDCYFPDPVTRAIDDERRSRFEQERGHFESRHAIILTWRPPERRRAGLAR
YIYSDTESRSASYADTAIESFRTSIREVEQYLASVLSIRRMETREVEERDGTRIARYDELFQFIRFCITG
ENHPIRLPDIPMYLDWLATAELQHGLSPMVENRFLGVVAIDGFPAESWPGILNSLDLMPLTYRWSSRFMF
LDDQDARQKLERTRKKWQQKVRPFIDQLFQTQSRSIDQDAAAMVAETEDAIAQASSQLVAYGYYTPVIVL
FDESSARLQEKAEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANIREPLINTRNLADLIPLNSVWS
GNPTAPCPFYPPSSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLLALIAAQFRRYAGAQIFA
FDKGRSMMPLTLAAGGDHYEIGADDADGAPALAFCPLSDLSTDTDRAWAAEWVETLVAVQGVLITPDHRN
AISRQIGLMVKARGRSLSDFVSGVQMRDIKDALHHYTVDGPMGQLLDAERDGLQLGSFQTFEIEQLMSMG
ERNLVPVLTYLFRRIEKRLTGSPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVLLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAVPKREYYVASPEGRRLFNMALGP
VALSFVGASGKEDLKRILALKKAAANWPVHWLKERGVGHAETLLADL
MVALRSFRHSGPSFADLVPYAGLVANGIVLLKDGSLMAGWYFAGPDSESSTDAERNGVSRQINTILARLG
SGWMIQVEAVRVPTTDYPARQDCYFPDPVTRAIDDERRSRFEQERGHFESRHAIILTWRPPERRRAGLAR
YIYSDTESRSASYADTAIESFRTSIREVEQYLASVLSIRRMETREVEERDGTRIARYDELFQFIRFCITG
ENHPIRLPDIPMYLDWLATAELQHGLSPMVENRFLGVVAIDGFPAESWPGILNSLDLMPLTYRWSSRFMF
LDDQDARQKLERTRKKWQQKVRPFIDQLFQTQSRSIDQDAAAMVAETEDAIAQASSQLVAYGYYTPVIVL
FDESSARLQEKAEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANIREPLINTRNLADLIPLNSVWS
GNPTAPCPFYPPSSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLLALIAAQFRRYAGAQIFA
FDKGRSMMPLTLAAGGDHYEIGADDADGAPALAFCPLSDLSTDTDRAWAAEWVETLVAVQGVLITPDHRN
AISRQIGLMVKARGRSLSDFVSGVQMRDIKDALHHYTVDGPMGQLLDAERDGLQLGSFQTFEIEQLMSMG
ERNLVPVLTYLFRRIEKRLTGSPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVLLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAVPKREYYVASPEGRRLFNMALGP
VALSFVGASGKEDLKRILALKKAAANWPVHWLKERGVGHAETLLADL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 10705 | GenBank | WP_304501739 |
| Name | traG_QIH95_RS50985_pS11L-2 |
UniProt ID | _ |
| Length | 643 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 643 a.a. Molecular weight: 69632.46 Da Isoelectric Point: 9.1675
>WP_304501739.1 Ti-type conjugative transfer system protein TraG [Bradyrhizobium japonicum]
MKANKIALAIIPALLMAGLCLALTGIEAWLSKFGITPKAHLVLGRIGIALPYVIAAAIGVVFLFAAAGAT
AIRFAGWSVVFGGFVVVAIAASHEIARLHSFVDALPVGDRLLSYADPSTVAGATIAALTAVFGLRVAMRG
NAAFAAAEPRRIRGRRAIHGEADWMTITEAARLFPEAGGIVVGERYRVDRDAVTDRSFRADDAETWGAGG
KSPLLCFDASFGSSHGIVFAGSGGFKTTSVTVPTALKWGGGLVVLDPSYEVAPMVTGHRHGAGRQVFVLD
PRSSGVGFNVLDWIGQHGATKEEDIAAVASWIMTDNPRQGSARDDFFRASALQLLTALTADVCLSGHTEK
KDQHLRQVRANLSEPEPKLRQRLQTIYDNSESGFVKENVAPFIAMTPETFSGVYANAVKETHWLSYANYA
ALVSGASFTTAELAEGRTDVFINLDLKTLENYAGLARIVIGSLLNAIYNRNGEVTGRTLFLLDEVARLGY
LRILETARDAGRKYGITLLVLYQSIGQMREAYGGRDATSKWFESASWISFSAINDPETADYISKRCGDTT
VEVDQLSQSSQTSGSSRTRSKQLARRPLVLPHEVLRMRTDEQIIFTAGNPPLRCGRAIWFRRTDMRACVG
ENRFYRREASGRS
MKANKIALAIIPALLMAGLCLALTGIEAWLSKFGITPKAHLVLGRIGIALPYVIAAAIGVVFLFAAAGAT
AIRFAGWSVVFGGFVVVAIAASHEIARLHSFVDALPVGDRLLSYADPSTVAGATIAALTAVFGLRVAMRG
NAAFAAAEPRRIRGRRAIHGEADWMTITEAARLFPEAGGIVVGERYRVDRDAVTDRSFRADDAETWGAGG
KSPLLCFDASFGSSHGIVFAGSGGFKTTSVTVPTALKWGGGLVVLDPSYEVAPMVTGHRHGAGRQVFVLD
PRSSGVGFNVLDWIGQHGATKEEDIAAVASWIMTDNPRQGSARDDFFRASALQLLTALTADVCLSGHTEK
KDQHLRQVRANLSEPEPKLRQRLQTIYDNSESGFVKENVAPFIAMTPETFSGVYANAVKETHWLSYANYA
ALVSGASFTTAELAEGRTDVFINLDLKTLENYAGLARIVIGSLLNAIYNRNGEVTGRTLFLLDEVARLGY
LRILETARDAGRKYGITLLVLYQSIGQMREAYGGRDATSKWFESASWISFSAINDPETADYISKRCGDTT
VEVDQLSQSSQTSGSSRTRSKQLARRPLVLPHEVLRMRTDEQIIFTAGNPPLRCGRAIWFRRTDMRACVG
ENRFYRREASGRS
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1046..10574
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| QIH95_RS50575 (QIH95_50575) | 414..1040 | + | 627 | WP_304501761 | acyl-homoserine-lactone synthase TraI | - |
| QIH95_RS50580 (QIH95_50580) | 1046..2014 | + | 969 | WP_304501762 | P-type conjugative transfer ATPase TrbB | virB11 |
| QIH95_RS50585 (QIH95_50585) | 2004..2363 | + | 360 | WP_304501763 | TrbC/VirB2 family protein | virB2 |
| QIH95_RS50590 (QIH95_50590) | 2356..2655 | + | 300 | WP_304501764 | conjugal transfer protein TrbD | virB3 |
| QIH95_RS50595 (QIH95_50595) | 2665..5118 | + | 2454 | WP_304501765 | conjugal transfer protein TrbE | virb4 |
| QIH95_RS50600 (QIH95_50600) | 5090..5887 | + | 798 | WP_304501766 | P-type conjugative transfer protein TrbJ | virB5 |
| QIH95_RS50605 (QIH95_50605) | 5884..6069 | + | 186 | WP_304501767 | DUF2749 domain-containing protein | - |
| QIH95_RS50610 (QIH95_50610) | 6086..7246 | + | 1161 | WP_304501768 | P-type conjugative transfer protein TrbL | virB6 |
| QIH95_RS50615 (QIH95_50615) | 7290..7952 | + | 663 | WP_304501769 | conjugal transfer protein TrbF | virB8 |
| QIH95_RS50620 (QIH95_50620) | 7970..8806 | + | 837 | WP_304501770 | P-type conjugative transfer protein TrbG | virB9 |
| QIH95_RS50625 (QIH95_50625) | 8809..9261 | + | 453 | WP_304501771 | conjugal transfer protein TrbH | - |
| QIH95_RS50630 (QIH95_50630) | 9273..10574 | + | 1302 | WP_304501772 | IncP-type conjugal transfer protein TrbI | virB10 |
| QIH95_RS50635 (QIH95_50635) | 11156..11377 | - | 222 | WP_157783824 | hypothetical protein | - |
| QIH95_RS50640 (QIH95_50640) | 12048..12665 | - | 618 | WP_304501787 | response regulator transcription factor | - |
| QIH95_RS50645 (QIH95_50645) | 13044..14108 | + | 1065 | WP_026192128 | IS630-like element ISRj1 family transposase | - |
| QIH95_RS50650 (QIH95_50650) | 14161..15429 | - | 1269 | WP_060912214 | IS256 family transposase | - |
Host bacterium
| ID | 14856 | GenBank | NZ_CP126015 |
| Plasmid name | pS11L-2 | Incompatibility group | - |
| Plasmid size | 161211 bp | Coordinate of oriT [Strand] | 125226..125262 [-] |
| Host baterium | Bradyrhizobium japonicum strain S11L-Bj |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |